data_3OIE # _entry.id 3OIE # _audit_conform.dict_name mmcif_pdbx.dic _audit_conform.dict_version 5.387 _audit_conform.dict_location http://mmcif.pdb.org/dictionaries/ascii/mmcif_pdbx.dic # loop_ _database_2.database_id _database_2.database_code _database_2.pdbx_database_accession _database_2.pdbx_DOI PDB 3OIE pdb_00003oie 10.2210/pdb3oie/pdb NDB NA0694 ? ? RCSB RCSB061154 ? ? WWPDB D_1000061154 ? ? # loop_ _pdbx_audit_revision_history.ordinal _pdbx_audit_revision_history.data_content_type _pdbx_audit_revision_history.major_revision _pdbx_audit_revision_history.minor_revision _pdbx_audit_revision_history.revision_date 1 'Structure model' 1 0 2011-01-19 2 'Structure model' 1 1 2011-07-13 3 'Structure model' 1 2 2024-02-21 # _pdbx_audit_revision_details.ordinal 1 _pdbx_audit_revision_details.revision_ordinal 1 _pdbx_audit_revision_details.data_content_type 'Structure model' _pdbx_audit_revision_details.provider repository _pdbx_audit_revision_details.type 'Initial release' _pdbx_audit_revision_details.description ? _pdbx_audit_revision_details.details ? # loop_ _pdbx_audit_revision_group.ordinal _pdbx_audit_revision_group.revision_ordinal _pdbx_audit_revision_group.data_content_type _pdbx_audit_revision_group.group 1 2 'Structure model' 'Version format compliance' 2 3 'Structure model' 'Data collection' 3 3 'Structure model' 'Database references' 4 3 'Structure model' 'Derived calculations' # loop_ _pdbx_audit_revision_category.ordinal _pdbx_audit_revision_category.revision_ordinal _pdbx_audit_revision_category.data_content_type _pdbx_audit_revision_category.category 1 3 'Structure model' chem_comp_atom 2 3 'Structure model' chem_comp_bond 3 3 'Structure model' database_2 4 3 'Structure model' pdbx_struct_conn_angle 5 3 'Structure model' struct_conn 6 3 'Structure model' struct_site # loop_ _pdbx_audit_revision_item.ordinal _pdbx_audit_revision_item.revision_ordinal _pdbx_audit_revision_item.data_content_type _pdbx_audit_revision_item.item 1 3 'Structure model' '_database_2.pdbx_DOI' 2 3 'Structure model' '_database_2.pdbx_database_accession' 3 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_asym_id' 4 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_auth_seq_id' 5 3 'Structure model' '_pdbx_struct_conn_angle.ptnr1_label_asym_id' 6 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_asym_id' 7 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_auth_seq_id' 8 3 'Structure model' '_pdbx_struct_conn_angle.ptnr3_label_asym_id' 9 3 'Structure model' '_pdbx_struct_conn_angle.value' 10 3 'Structure model' '_struct_conn.pdbx_dist_value' 11 3 'Structure model' '_struct_conn.ptnr2_auth_asym_id' 12 3 'Structure model' '_struct_conn.ptnr2_auth_seq_id' 13 3 'Structure model' '_struct_conn.ptnr2_label_asym_id' 14 3 'Structure model' '_struct_site.pdbx_auth_asym_id' 15 3 'Structure model' '_struct_site.pdbx_auth_comp_id' 16 3 'Structure model' '_struct_site.pdbx_auth_seq_id' # _pdbx_database_status.entry_id 3OIE _pdbx_database_status.status_code REL _pdbx_database_status.deposit_site RCSB _pdbx_database_status.process_site RCSB _pdbx_database_status.recvd_initial_deposition_date 2010-08-19 _pdbx_database_status.status_code_sf REL _pdbx_database_status.status_code_mr ? _pdbx_database_status.SG_entry ? _pdbx_database_status.status_code_cs ? _pdbx_database_status.pdb_format_compatible Y _pdbx_database_status.status_code_nmr_data ? _pdbx_database_status.methods_development_category ? # loop_ _audit_author.name _audit_author.pdbx_ordinal 'Lin, S.' 1 'Neidle, S.' 2 'Campbell, N.' 3 # _citation.id primary _citation.title 'Crystal structure of the DB1880-D(CGCGAATTCGCG)2 complex' _citation.journal_abbrev 'To be Published' _citation.journal_volume ? _citation.page_first ? _citation.page_last ? _citation.year ? _citation.journal_id_ASTM ? _citation.country ? _citation.journal_id_ISSN ? _citation.journal_id_CSD 0353 _citation.book_publisher ? _citation.pdbx_database_id_PubMed ? _citation.pdbx_database_id_DOI ? # loop_ _citation_author.citation_id _citation_author.name _citation_author.ordinal _citation_author.identifier_ORCID primary 'Lin, S.' 1 ? primary 'Neidle, S.' 2 ? primary 'Campbell, N.' 3 ? # loop_ _entity.id _entity.type _entity.src_method _entity.pdbx_description _entity.formula_weight _entity.pdbx_number_of_molecules _entity.pdbx_ec _entity.pdbx_mutation _entity.pdbx_fragment _entity.details 1 polymer syn "5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)-3'" 3663.392 2 ? ? ? 'A2T2 Duplex' 2 non-polymer syn 'MAGNESIUM ION' 24.305 1 ? ? ? ? 3 non-polymer syn "N',N''-{furan-2,5-diylbis[3-(piperidin-4-yloxy)benzene-4,1-diyl]}dipyridine-2-carboximidamide" 656.776 1 ? ? ? ? 4 water nat water 18.015 136 ? ? ? ? # _entity_poly.entity_id 1 _entity_poly.type polydeoxyribonucleotide _entity_poly.nstd_linkage no _entity_poly.nstd_monomer no _entity_poly.pdbx_seq_one_letter_code '(DC)(DG)(DC)(DG)(DA)(DA)(DT)(DT)(DC)(DG)(DC)(DG)' _entity_poly.pdbx_seq_one_letter_code_can CGCGAATTCGCG _entity_poly.pdbx_strand_id A,B _entity_poly.pdbx_target_identifier ? # loop_ _pdbx_entity_nonpoly.entity_id _pdbx_entity_nonpoly.name _pdbx_entity_nonpoly.comp_id 2 'MAGNESIUM ION' MG 3 "N',N''-{furan-2,5-diylbis[3-(piperidin-4-yloxy)benzene-4,1-diyl]}dipyridine-2-carboximidamide" 881 4 water HOH # loop_ _entity_poly_seq.entity_id _entity_poly_seq.num _entity_poly_seq.mon_id _entity_poly_seq.hetero 1 1 DC n 1 2 DG n 1 3 DC n 1 4 DG n 1 5 DA n 1 6 DA n 1 7 DT n 1 8 DT n 1 9 DC n 1 10 DG n 1 11 DC n 1 12 DG n # loop_ _chem_comp.id _chem_comp.type _chem_comp.mon_nstd_flag _chem_comp.name _chem_comp.pdbx_synonyms _chem_comp.formula _chem_comp.formula_weight 881 non-polymer . "N',N''-{furan-2,5-diylbis[3-(piperidin-4-yloxy)benzene-4,1-diyl]}dipyridine-2-carboximidamide" DB1880 'C38 H40 N8 O3' 656.776 DA 'DNA linking' y "2'-DEOXYADENOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O6 P' 331.222 DC 'DNA linking' y "2'-DEOXYCYTIDINE-5'-MONOPHOSPHATE" ? 'C9 H14 N3 O7 P' 307.197 DG 'DNA linking' y "2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE" ? 'C10 H14 N5 O7 P' 347.221 DT 'DNA linking' y "THYMIDINE-5'-MONOPHOSPHATE" ? 'C10 H15 N2 O8 P' 322.208 HOH non-polymer . WATER ? 'H2 O' 18.015 MG non-polymer . 'MAGNESIUM ION' ? 'Mg 2' 24.305 # loop_ _pdbx_poly_seq_scheme.asym_id _pdbx_poly_seq_scheme.entity_id _pdbx_poly_seq_scheme.seq_id _pdbx_poly_seq_scheme.mon_id _pdbx_poly_seq_scheme.ndb_seq_num _pdbx_poly_seq_scheme.pdb_seq_num _pdbx_poly_seq_scheme.auth_seq_num _pdbx_poly_seq_scheme.pdb_mon_id _pdbx_poly_seq_scheme.auth_mon_id _pdbx_poly_seq_scheme.pdb_strand_id _pdbx_poly_seq_scheme.pdb_ins_code _pdbx_poly_seq_scheme.hetero A 1 1 DC 1 1 1 DC DC A . n A 1 2 DG 2 2 2 DG DG A . n A 1 3 DC 3 3 3 DC DC A . n A 1 4 DG 4 4 4 DG DG A . n A 1 5 DA 5 5 5 DA DA A . n A 1 6 DA 6 6 6 DA DA A . n A 1 7 DT 7 7 7 DT DT A . n A 1 8 DT 8 8 8 DT DT A . n A 1 9 DC 9 9 9 DC DC A . n A 1 10 DG 10 10 10 DG DG A . n A 1 11 DC 11 11 11 DC DC A . n A 1 12 DG 12 12 12 DG DG A . n B 1 1 DC 1 13 13 DC DC B . n B 1 2 DG 2 14 14 DG DG B . n B 1 3 DC 3 15 15 DC DC B . n B 1 4 DG 4 16 16 DG DG B . n B 1 5 DA 5 17 17 DA DA B . n B 1 6 DA 6 18 18 DA DA B . n B 1 7 DT 7 19 19 DT DT B . n B 1 8 DT 8 20 20 DT DT B . n B 1 9 DC 9 21 21 DC DC B . n B 1 10 DG 10 22 22 DG DG B . n B 1 11 DC 11 23 23 DC DC B . n B 1 12 DG 12 24 24 DG DG B . n # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.pdb_ins_code C 2 MG 1 13 1 MG MG A . D 3 881 1 1 1 881 881 B . E 4 HOH 1 14 14 HOH HOH A . E 4 HOH 2 15 15 HOH HOH A . E 4 HOH 3 16 16 HOH HOH A . E 4 HOH 4 17 2 HOH HOH A . E 4 HOH 5 18 7 HOH HOH A . E 4 HOH 6 19 19 HOH HOH A . E 4 HOH 7 20 20 HOH HOH A . E 4 HOH 8 21 21 HOH HOH A . E 4 HOH 9 22 10 HOH HOH A . E 4 HOH 10 23 11 HOH HOH A . E 4 HOH 11 24 1 HOH HOH A . E 4 HOH 12 25 25 HOH HOH A . E 4 HOH 13 26 2 HOH HOH A . E 4 HOH 14 27 3 HOH HOH A . E 4 HOH 15 28 28 HOH HOH A . E 4 HOH 16 29 29 HOH HOH A . E 4 HOH 17 30 10 HOH HOH A . E 4 HOH 18 31 31 HOH HOH A . E 4 HOH 19 32 32 HOH HOH A . E 4 HOH 20 33 33 HOH HOH A . E 4 HOH 21 35 35 HOH HOH A . E 4 HOH 22 36 13 HOH HOH A . E 4 HOH 23 37 14 HOH HOH A . E 4 HOH 24 38 38 HOH HOH A . E 4 HOH 25 39 39 HOH HOH A . E 4 HOH 26 40 40 HOH HOH A . E 4 HOH 27 41 41 HOH HOH A . E 4 HOH 28 42 2 HOH HOH A . E 4 HOH 29 43 9 HOH HOH A . E 4 HOH 30 45 45 HOH HOH A . E 4 HOH 31 46 46 HOH HOH A . E 4 HOH 32 47 2 HOH HOH A . E 4 HOH 33 48 4 HOH HOH A . E 4 HOH 34 49 5 HOH HOH A . E 4 HOH 35 50 6 HOH HOH A . E 4 HOH 36 52 52 HOH HOH A . E 4 HOH 37 54 54 HOH HOH A . E 4 HOH 38 57 57 HOH HOH A . E 4 HOH 39 59 59 HOH HOH A . E 4 HOH 40 62 62 HOH HOH A . E 4 HOH 41 63 63 HOH HOH A . E 4 HOH 42 66 66 HOH HOH A . E 4 HOH 43 67 67 HOH HOH A . E 4 HOH 44 70 70 HOH HOH A . E 4 HOH 45 71 71 HOH HOH A . E 4 HOH 46 72 72 HOH HOH A . E 4 HOH 47 78 78 HOH HOH A . E 4 HOH 48 82 82 HOH HOH A . E 4 HOH 49 86 86 HOH HOH A . E 4 HOH 50 89 89 HOH HOH A . E 4 HOH 51 90 90 HOH HOH A . E 4 HOH 52 91 91 HOH HOH A . E 4 HOH 53 93 93 HOH HOH A . E 4 HOH 54 96 96 HOH HOH A . E 4 HOH 55 98 98 HOH HOH A . E 4 HOH 56 103 103 HOH HOH A . E 4 HOH 57 104 104 HOH HOH A . E 4 HOH 58 106 106 HOH HOH A . E 4 HOH 59 107 107 HOH HOH A . E 4 HOH 60 114 114 HOH HOH A . E 4 HOH 61 115 115 HOH HOH A . E 4 HOH 62 116 116 HOH HOH A . E 4 HOH 63 117 117 HOH HOH A . E 4 HOH 64 122 122 HOH HOH A . E 4 HOH 65 123 123 HOH HOH A . E 4 HOH 66 124 124 HOH HOH A . E 4 HOH 67 125 125 HOH HOH A . E 4 HOH 68 126 126 HOH HOH A . F 4 HOH 1 3 3 HOH HOH B . F 4 HOH 2 4 4 HOH HOH B . F 4 HOH 3 5 5 HOH HOH B . F 4 HOH 4 6 6 HOH HOH B . F 4 HOH 5 7 7 HOH HOH B . F 4 HOH 6 8 8 HOH HOH B . F 4 HOH 7 9 9 HOH HOH B . F 4 HOH 8 11 11 HOH HOH B . F 4 HOH 9 12 12 HOH HOH B . F 4 HOH 10 25 1 HOH HOH B . F 4 HOH 11 26 26 HOH HOH B . F 4 HOH 12 27 13 HOH HOH B . F 4 HOH 13 28 15 HOH HOH B . F 4 HOH 14 29 16 HOH HOH B . F 4 HOH 15 30 30 HOH HOH B . F 4 HOH 16 31 17 HOH HOH B . F 4 HOH 17 32 18 HOH HOH B . F 4 HOH 18 33 22 HOH HOH B . F 4 HOH 19 34 12 HOH HOH B . F 4 HOH 20 35 23 HOH HOH B . F 4 HOH 21 36 36 HOH HOH B . F 4 HOH 22 37 37 HOH HOH B . F 4 HOH 23 38 4 HOH HOH B . F 4 HOH 24 39 5 HOH HOH B . F 4 HOH 25 40 8 HOH HOH B . F 4 HOH 26 41 20 HOH HOH B . F 4 HOH 27 42 42 HOH HOH B . F 4 HOH 28 43 43 HOH HOH B . F 4 HOH 29 44 1 HOH HOH B . F 4 HOH 30 45 1 HOH HOH B . F 4 HOH 31 46 3 HOH HOH B . F 4 HOH 32 47 47 HOH HOH B . F 4 HOH 33 48 48 HOH HOH B . F 4 HOH 34 49 49 HOH HOH B . F 4 HOH 35 50 50 HOH HOH B . F 4 HOH 36 51 4 HOH HOH B . F 4 HOH 37 52 5 HOH HOH B . F 4 HOH 38 53 53 HOH HOH B . F 4 HOH 39 54 6 HOH HOH B . F 4 HOH 40 55 55 HOH HOH B . F 4 HOH 41 56 56 HOH HOH B . F 4 HOH 42 57 8 HOH HOH B . F 4 HOH 43 58 58 HOH HOH B . F 4 HOH 44 59 34 HOH HOH B . F 4 HOH 45 60 60 HOH HOH B . F 4 HOH 46 61 44 HOH HOH B . F 4 HOH 47 64 64 HOH HOH B . F 4 HOH 48 68 68 HOH HOH B . F 4 HOH 49 73 73 HOH HOH B . F 4 HOH 50 74 74 HOH HOH B . F 4 HOH 51 75 75 HOH HOH B . F 4 HOH 52 77 77 HOH HOH B . F 4 HOH 53 80 80 HOH HOH B . F 4 HOH 54 81 81 HOH HOH B . F 4 HOH 55 84 84 HOH HOH B . F 4 HOH 56 85 85 HOH HOH B . F 4 HOH 57 87 87 HOH HOH B . F 4 HOH 58 92 92 HOH HOH B . F 4 HOH 59 94 94 HOH HOH B . F 4 HOH 60 97 97 HOH HOH B . F 4 HOH 61 102 102 HOH HOH B . F 4 HOH 62 109 109 HOH HOH B . F 4 HOH 63 110 110 HOH HOH B . F 4 HOH 64 111 111 HOH HOH B . F 4 HOH 65 112 112 HOH HOH B . F 4 HOH 66 113 113 HOH HOH B . F 4 HOH 67 119 119 HOH HOH B . F 4 HOH 68 121 121 HOH HOH B . # loop_ _software.pdbx_ordinal _software.name _software.version _software.date _software.type _software.contact_author _software.contact_author_email _software.classification _software.location _software.language _software.citation_id 1 SCALA 3.3.16 2010/01/06 other 'Phil R. Evans' pre@mrc-lmb.cam.ac.uk 'data scaling' http://www.ccp4.ac.uk/dist/html/scala.html Fortran_77 ? 2 REFMAC 5.5.0109 ? program 'Garib N. Murshudov' garib@ysbl.york.ac.uk refinement http://www.ccp4.ac.uk/dist/html/refmac5.html Fortran_77 ? 3 PDB_EXTRACT 3.10 'June 10, 2010' package PDB deposit@deposit.rcsb.org 'data extraction' http://sw-tools.pdb.org/apps/PDB_EXTRACT/ C++ ? 4 CrysalisPro . ? ? ? ? 'data collection' ? ? ? 5 CrysalisPro . ? ? ? ? 'data reduction' ? ? ? 6 REFMAC 5.5.0109 ? ? ? ? phasing ? ? ? # _cell.length_a 24.114 _cell.length_b 38.417 _cell.length_c 66.205 _cell.angle_alpha 90.000 _cell.angle_beta 90.000 _cell.angle_gamma 90.000 _cell.entry_id 3OIE _cell.pdbx_unique_axis ? _cell.Z_PDB 8 _cell.length_a_esd ? _cell.length_b_esd ? _cell.length_c_esd ? _cell.angle_alpha_esd ? _cell.angle_beta_esd ? _cell.angle_gamma_esd ? # _symmetry.space_group_name_H-M 'P 21 21 21' _symmetry.entry_id 3OIE _symmetry.Int_Tables_number 19 _symmetry.pdbx_full_space_group_name_H-M ? _symmetry.cell_setting ? _symmetry.space_group_name_Hall ? # _exptl.crystals_number 1 _exptl.entry_id 3OIE _exptl.method 'X-RAY DIFFRACTION' # _exptl_crystal.id 1 _exptl_crystal.density_Matthews 2.09 _exptl_crystal.density_meas ? _exptl_crystal.density_percent_sol 41.22 _exptl_crystal.description ? _exptl_crystal.F_000 ? _exptl_crystal.preparation ? # _exptl_crystal_grow.crystal_id 1 _exptl_crystal_grow.method 'VAPOR DIFFUSION, HANGING DROP' _exptl_crystal_grow.pH 6.5 _exptl_crystal_grow.temp 283 _exptl_crystal_grow.pdbx_details 'MAGNESIUM CHLORIDE, DNA, COMPOUND, DB1880, MPD, SODIUM CACODYLATE BUFFER, pH 6.5, vapor diffusion, hanging drop, temperature 283K' _exptl_crystal_grow.temp_details ? _exptl_crystal_grow.pdbx_pH_range ? # _diffrn.id 1 _diffrn.ambient_temp 105 _diffrn.ambient_temp_details ? _diffrn.crystal_id 1 # _diffrn_detector.diffrn_id 1 _diffrn_detector.detector CCD _diffrn_detector.type CCD _diffrn_detector.pdbx_collection_date 2010-03-16 _diffrn_detector.details ? # _diffrn_radiation.diffrn_id 1 _diffrn_radiation.pdbx_diffrn_protocol 'SINGLE WAVELENGTH' _diffrn_radiation.monochromator ? _diffrn_radiation.wavelength_id 1 _diffrn_radiation.pdbx_monochromatic_or_laue_m_l M _diffrn_radiation.pdbx_scattering_type x-ray # _diffrn_radiation_wavelength.id 1 _diffrn_radiation_wavelength.wavelength 1.5418 _diffrn_radiation_wavelength.wt 1.0 # _diffrn_source.diffrn_id 1 _diffrn_source.source 'SEALED TUBE' _diffrn_source.type 'OXFORD DIFFRACTION ENHANCE ULTRA' _diffrn_source.pdbx_wavelength_list 1.5418 _diffrn_source.pdbx_wavelength ? _diffrn_source.pdbx_synchrotron_site ? _diffrn_source.pdbx_synchrotron_beamline ? # _reflns.entry_id 3OIE _reflns.d_resolution_high 1.900 _reflns.d_resolution_low 33.228 _reflns.number_all 5003 _reflns.number_obs 5003 _reflns.pdbx_netI_over_sigmaI 20.200 _reflns.pdbx_Rsym_value 0.036 _reflns.pdbx_redundancy 3.400 _reflns.percent_possible_obs 96.200 _reflns.observed_criterion_sigma_F ? _reflns.observed_criterion_sigma_I ? _reflns.pdbx_Rmerge_I_obs ? _reflns.B_iso_Wilson_estimate ? _reflns.R_free_details ? _reflns.limit_h_max ? _reflns.limit_h_min ? _reflns.limit_k_max ? _reflns.limit_k_min ? _reflns.limit_l_max ? _reflns.limit_l_min ? _reflns.observed_criterion_F_max ? _reflns.observed_criterion_F_min ? _reflns.pdbx_chi_squared ? _reflns.pdbx_scaling_rejects ? _reflns.pdbx_diffrn_id 1 _reflns.pdbx_ordinal 1 # loop_ _reflns_shell.d_res_high _reflns_shell.d_res_low _reflns_shell.number_measured_obs _reflns_shell.number_measured_all _reflns_shell.number_unique_obs _reflns_shell.Rmerge_I_obs _reflns_shell.meanI_over_sigI_obs _reflns_shell.pdbx_Rsym_value _reflns_shell.pdbx_chi_squared _reflns_shell.pdbx_redundancy _reflns_shell.percent_possible_obs _reflns_shell.number_unique_all _reflns_shell.percent_possible_all _reflns_shell.pdbx_diffrn_id _reflns_shell.pdbx_ordinal 1.900 2.000 ? 1228 ? 0.130 5.0 0.130 ? 2.100 ? 587 80.400 ? 1 2.000 2.120 ? 2016 ? 0.111 6.9 0.111 ? 3.000 ? 671 97.500 ? 2 2.120 2.270 ? 2454 ? 0.093 8.1 0.093 ? 3.700 ? 658 99.200 ? 3 2.270 2.450 ? 2293 ? 0.068 10.9 0.068 ? 3.800 ? 611 99.300 ? 4 2.450 2.690 ? 2178 ? 0.047 15.0 0.047 ? 3.800 ? 578 99.700 ? 5 2.690 3.000 ? 1948 ? 0.039 17.6 0.039 ? 3.700 ? 522 99.900 ? 6 3.000 3.470 ? 1736 ? 0.036 4.7 0.036 ? 3.700 ? 471 99.900 ? 7 3.470 4.250 ? 1438 ? 0.026 13.8 0.026 ? 3.600 ? 403 100.000 ? 8 4.250 6.010 ? 1160 ? 0.021 27.4 0.021 ? 3.600 ? 322 99.200 ? 9 6.010 22.658 ? 591 ? 0.027 15.7 0.027 ? 3.300 ? 180 92.900 ? 10 # _refine.entry_id 3OIE _refine.ls_d_res_high 1.9000 _refine.ls_d_res_low 22.6600 _refine.pdbx_ls_sigma_F 0.000 _refine.pdbx_data_cutoff_high_absF ? _refine.pdbx_data_cutoff_low_absF ? _refine.ls_percent_reflns_obs 95.3300 _refine.ls_number_reflns_obs 4962 _refine.ls_number_reflns_all ? _refine.pdbx_ls_cross_valid_method THROUGHOUT _refine.pdbx_R_Free_selection_details RANDOM _refine.details 'HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. U VALUES: REFINED INDIVIDUALLY' _refine.ls_R_factor_all ? _refine.ls_R_factor_obs 0.1667 _refine.ls_R_factor_R_work 0.1630 _refine.ls_wR_factor_R_work ? _refine.ls_R_factor_R_free 0.2408 _refine.ls_wR_factor_R_free ? _refine.ls_percent_reflns_R_free 4.6000 _refine.ls_number_reflns_R_free 229 _refine.ls_R_factor_R_free_error ? _refine.B_iso_mean 21.7830 _refine.solvent_model_param_bsol ? _refine.solvent_model_param_ksol ? _refine.pdbx_isotropic_thermal_model ? _refine.aniso_B[1][1] -0.0100 _refine.aniso_B[2][2] -0.0100 _refine.aniso_B[3][3] 0.0200 _refine.aniso_B[1][2] 0.0000 _refine.aniso_B[1][3] 0.0000 _refine.aniso_B[2][3] 0.0000 _refine.correlation_coeff_Fo_to_Fc 0.9710 _refine.correlation_coeff_Fo_to_Fc_free 0.9550 _refine.overall_SU_R_Cruickshank_DPI ? _refine.overall_SU_R_free ? _refine.pdbx_overall_ESU_R_Free 0.1780 _refine.overall_SU_ML 0.1220 _refine.overall_SU_B 4.2330 _refine.solvent_model_details MASK _refine.pdbx_solvent_vdw_probe_radii 1.4000 _refine.pdbx_solvent_ion_probe_radii 0.8000 _refine.pdbx_solvent_shrinkage_radii 0.8000 _refine.ls_number_parameters ? _refine.ls_number_restraints ? _refine.pdbx_starting_model ? _refine.pdbx_method_to_determine_struct 'MOLECULAR REPLACEMENT' _refine.pdbx_stereochemistry_target_values 'MAXIMUM LIKELIHOOD' _refine.pdbx_stereochem_target_val_spec_case ? _refine.overall_FOM_work_R_set ? _refine.B_iso_max 55.950 _refine.B_iso_min 8.420 _refine.occupancy_max 1.000 _refine.occupancy_min 1.000 _refine.pdbx_ls_sigma_I ? _refine.ls_redundancy_reflns_obs ? _refine.ls_R_factor_R_free_error_details ? _refine.pdbx_data_cutoff_high_rms_absF ? _refine.overall_FOM_free_R_set ? _refine.pdbx_overall_phase_error ? _refine.pdbx_refine_id 'X-RAY DIFFRACTION' _refine.pdbx_overall_ESU_R ? _refine.pdbx_diffrn_id 1 _refine.pdbx_TLS_residual_ADP_flag ? _refine.pdbx_overall_SU_R_free_Cruickshank_DPI ? _refine.pdbx_overall_SU_R_Blow_DPI ? _refine.pdbx_overall_SU_R_free_Blow_DPI ? # _refine_hist.pdbx_refine_id 'X-RAY DIFFRACTION' _refine_hist.cycle_id LAST _refine_hist.pdbx_number_atoms_protein 0 _refine_hist.pdbx_number_atoms_nucleic_acid 486 _refine_hist.pdbx_number_atoms_ligand 50 _refine_hist.number_atoms_solvent 136 _refine_hist.number_atoms_total 672 _refine_hist.d_res_high 1.9000 _refine_hist.d_res_low 22.6600 # loop_ _refine_ls_restr.type _refine_ls_restr.number _refine_ls_restr.dev_ideal _refine_ls_restr.dev_ideal_target _refine_ls_restr.weight _refine_ls_restr.pdbx_refine_id _refine_ls_restr.pdbx_restraint_function r_bond_refined_d 599 0.018 0.021 ? 'X-RAY DIFFRACTION' ? r_angle_refined_deg 911 3.031 3.011 ? 'X-RAY DIFFRACTION' ? r_chiral_restr 96 0.125 0.200 ? 'X-RAY DIFFRACTION' ? r_gen_planes_refined 301 0.017 0.020 ? 'X-RAY DIFFRACTION' ? r_scbond_it 599 2.505 3.000 ? 'X-RAY DIFFRACTION' ? r_scangle_it 911 3.294 4.500 ? 'X-RAY DIFFRACTION' ? # _refine_ls_shell.d_res_high 1.9010 _refine_ls_shell.d_res_low 1.9500 _refine_ls_shell.pdbx_total_number_of_bins_used 20 _refine_ls_shell.percent_reflns_obs 74.5900 _refine_ls_shell.number_reflns_R_work 261 _refine_ls_shell.R_factor_all ? _refine_ls_shell.R_factor_R_work 0.1920 _refine_ls_shell.R_factor_R_free 0.4160 _refine_ls_shell.percent_reflns_R_free ? _refine_ls_shell.number_reflns_R_free 15 _refine_ls_shell.R_factor_R_free_error ? _refine_ls_shell.number_reflns_all 276 _refine_ls_shell.number_reflns_obs ? _refine_ls_shell.redundancy_reflns_obs ? _refine_ls_shell.pdbx_refine_id 'X-RAY DIFFRACTION' # _struct.entry_id 3OIE _struct.title 'Crystal structure of the DB1880-D(CGCGAATTCGCG)2 complex' _struct.pdbx_model_details ? _struct.pdbx_CASP_flag ? _struct.pdbx_model_type_details ? # _struct_keywords.entry_id 3OIE _struct_keywords.text ;NUCLEIC ACIDS, DNA, DOUBLE HELIX, MINOR GROOVE, DNA MINOR GROOVE BINDER, DNA MINOR GROOVE-LIGAND COMPLEX, DB1880, A2T2, DICKERSON AND DREW DODECAMER, CRYSTAL STRUCTURE OF B-DNA, DNA-DRUG COMPLEX, MAGNESIUM-WATER COMPLEX, HYDRATED MAGNESIUM, DNA HYDRATION ; _struct_keywords.pdbx_keywords DNA # loop_ _struct_asym.id _struct_asym.pdbx_blank_PDB_chainid_flag _struct_asym.pdbx_modified _struct_asym.entity_id _struct_asym.details A N N 1 ? B N N 1 ? C N N 2 ? D N N 3 ? E N N 4 ? F N N 4 ? # _struct_ref.id 1 _struct_ref.db_name PDB _struct_ref.db_code 3OIE _struct_ref.pdbx_db_accession 3OIE _struct_ref.entity_id 1 _struct_ref.pdbx_align_begin ? _struct_ref.pdbx_seq_one_letter_code CGCGAATTCGCG _struct_ref.pdbx_db_isoform ? # loop_ _struct_ref_seq.align_id _struct_ref_seq.ref_id _struct_ref_seq.pdbx_PDB_id_code _struct_ref_seq.pdbx_strand_id _struct_ref_seq.seq_align_beg _struct_ref_seq.pdbx_seq_align_beg_ins_code _struct_ref_seq.seq_align_end _struct_ref_seq.pdbx_seq_align_end_ins_code _struct_ref_seq.pdbx_db_accession _struct_ref_seq.db_align_beg _struct_ref_seq.pdbx_db_align_beg_ins_code _struct_ref_seq.db_align_end _struct_ref_seq.pdbx_db_align_end_ins_code _struct_ref_seq.pdbx_auth_seq_align_beg _struct_ref_seq.pdbx_auth_seq_align_end 1 1 3OIE A 1 ? 12 ? 3OIE 1 ? 12 ? 1 12 2 1 3OIE B 1 ? 12 ? 3OIE 13 ? 24 ? 13 24 # _pdbx_struct_assembly.id 1 _pdbx_struct_assembly.details author_and_software_defined_assembly _pdbx_struct_assembly.method_details PISA _pdbx_struct_assembly.oligomeric_details dimeric _pdbx_struct_assembly.oligomeric_count 2 # loop_ _pdbx_struct_assembly_prop.biol_id _pdbx_struct_assembly_prop.type _pdbx_struct_assembly_prop.value _pdbx_struct_assembly_prop.details 1 'ABSA (A^2)' 1710 ? 1 MORE -9 ? 1 'SSA (A^2)' 4450 ? # _pdbx_struct_assembly_gen.assembly_id 1 _pdbx_struct_assembly_gen.oper_expression 1 _pdbx_struct_assembly_gen.asym_id_list A,B,C,D,E,F # _pdbx_struct_oper_list.id 1 _pdbx_struct_oper_list.type 'identity operation' _pdbx_struct_oper_list.name 1_555 _pdbx_struct_oper_list.symmetry_operation x,y,z _pdbx_struct_oper_list.matrix[1][1] 1.0000000000 _pdbx_struct_oper_list.matrix[1][2] 0.0000000000 _pdbx_struct_oper_list.matrix[1][3] 0.0000000000 _pdbx_struct_oper_list.vector[1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][1] 0.0000000000 _pdbx_struct_oper_list.matrix[2][2] 1.0000000000 _pdbx_struct_oper_list.matrix[2][3] 0.0000000000 _pdbx_struct_oper_list.vector[2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][1] 0.0000000000 _pdbx_struct_oper_list.matrix[3][2] 0.0000000000 _pdbx_struct_oper_list.matrix[3][3] 1.0000000000 _pdbx_struct_oper_list.vector[3] 0.0000000000 # _struct_biol.id 1 _struct_biol.details ? # loop_ _struct_conn.id _struct_conn.conn_type_id _struct_conn.pdbx_leaving_atom_flag _struct_conn.pdbx_PDB_id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_label_atom_id _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_label_atom_id _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.details _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order _struct_conn.pdbx_role metalc1 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 13 A HOH 24 1_555 ? ? ? ? ? ? ? 2.017 ? ? metalc2 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 13 A HOH 26 1_555 ? ? ? ? ? ? ? 2.118 ? ? metalc3 metalc ? ? C MG . MG ? ? ? 1_555 E HOH . O ? ? A MG 13 A HOH 27 1_555 ? ? ? ? ? ? ? 2.224 ? ? metalc4 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 13 B HOH 27 1_555 ? ? ? ? ? ? ? 2.306 ? ? metalc5 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 13 B HOH 38 1_555 ? ? ? ? ? ? ? 1.953 ? ? metalc6 metalc ? ? C MG . MG ? ? ? 1_555 F HOH . O ? ? A MG 13 B HOH 39 1_555 ? ? ? ? ? ? ? 2.197 ? ? hydrog1 hydrog ? ? A DC 1 N3 ? ? ? 1_555 B DG 12 N1 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog2 hydrog ? ? A DC 1 N4 ? ? ? 1_555 B DG 12 O6 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog3 hydrog ? ? A DC 1 O2 ? ? ? 1_555 B DG 12 N2 ? ? A DC 1 B DG 24 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog4 hydrog ? ? A DG 2 N1 ? ? ? 1_555 B DC 11 N3 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog5 hydrog ? ? A DG 2 N2 ? ? ? 1_555 B DC 11 O2 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog6 hydrog ? ? A DG 2 O6 ? ? ? 1_555 B DC 11 N4 ? ? A DG 2 B DC 23 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog7 hydrog ? ? A DC 3 N3 ? ? ? 1_555 B DG 10 N1 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog8 hydrog ? ? A DC 3 N4 ? ? ? 1_555 B DG 10 O6 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog9 hydrog ? ? A DC 3 O2 ? ? ? 1_555 B DG 10 N2 ? ? A DC 3 B DG 22 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog10 hydrog ? ? A DG 4 N1 ? ? ? 1_555 B DC 9 N3 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog11 hydrog ? ? A DG 4 N2 ? ? ? 1_555 B DC 9 O2 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog12 hydrog ? ? A DG 4 O6 ? ? ? 1_555 B DC 9 N4 ? ? A DG 4 B DC 21 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog13 hydrog ? ? A DA 5 N1 ? ? ? 1_555 B DT 8 N3 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog14 hydrog ? ? A DA 5 N6 ? ? ? 1_555 B DT 8 O4 ? ? A DA 5 B DT 20 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog15 hydrog ? ? A DA 6 N1 ? ? ? 1_555 B DT 7 N3 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog16 hydrog ? ? A DA 6 N6 ? ? ? 1_555 B DT 7 O4 ? ? A DA 6 B DT 19 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog17 hydrog ? ? A DT 7 N3 ? ? ? 1_555 B DA 6 N1 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog18 hydrog ? ? A DT 7 O4 ? ? ? 1_555 B DA 6 N6 ? ? A DT 7 B DA 18 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog19 hydrog ? ? A DT 8 N3 ? ? ? 1_555 B DA 5 N1 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog20 hydrog ? ? A DT 8 O4 ? ? ? 1_555 B DA 5 N6 ? ? A DT 8 B DA 17 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog21 hydrog ? ? A DC 9 N3 ? ? ? 1_555 B DG 4 N1 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog22 hydrog ? ? A DC 9 N4 ? ? ? 1_555 B DG 4 O6 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog23 hydrog ? ? A DC 9 O2 ? ? ? 1_555 B DG 4 N2 ? ? A DC 9 B DG 16 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog24 hydrog ? ? A DG 10 N1 ? ? ? 1_555 B DC 3 N3 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog25 hydrog ? ? A DG 10 N2 ? ? ? 1_555 B DC 3 O2 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog26 hydrog ? ? A DG 10 O6 ? ? ? 1_555 B DC 3 N4 ? ? A DG 10 B DC 15 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog27 hydrog ? ? A DC 11 N3 ? ? ? 1_555 B DG 2 N1 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog28 hydrog ? ? A DC 11 N4 ? ? ? 1_555 B DG 2 O6 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog29 hydrog ? ? A DC 11 O2 ? ? ? 1_555 B DG 2 N2 ? ? A DC 11 B DG 14 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog30 hydrog ? ? A DG 12 N1 ? ? ? 1_555 B DC 1 N3 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog31 hydrog ? ? A DG 12 N2 ? ? ? 1_555 B DC 1 O2 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? hydrog32 hydrog ? ? A DG 12 O6 ? ? ? 1_555 B DC 1 N4 ? ? A DG 12 B DC 13 1_555 ? ? ? ? ? ? WATSON-CRICK ? ? ? # loop_ _struct_conn_type.id _struct_conn_type.criteria _struct_conn_type.reference metalc ? ? hydrog ? ? # loop_ _pdbx_struct_conn_angle.id _pdbx_struct_conn_angle.ptnr1_label_atom_id _pdbx_struct_conn_angle.ptnr1_label_alt_id _pdbx_struct_conn_angle.ptnr1_label_asym_id _pdbx_struct_conn_angle.ptnr1_label_comp_id _pdbx_struct_conn_angle.ptnr1_label_seq_id _pdbx_struct_conn_angle.ptnr1_auth_atom_id _pdbx_struct_conn_angle.ptnr1_auth_asym_id _pdbx_struct_conn_angle.ptnr1_auth_comp_id _pdbx_struct_conn_angle.ptnr1_auth_seq_id _pdbx_struct_conn_angle.ptnr1_PDB_ins_code _pdbx_struct_conn_angle.ptnr1_symmetry _pdbx_struct_conn_angle.ptnr2_label_atom_id _pdbx_struct_conn_angle.ptnr2_label_alt_id _pdbx_struct_conn_angle.ptnr2_label_asym_id _pdbx_struct_conn_angle.ptnr2_label_comp_id _pdbx_struct_conn_angle.ptnr2_label_seq_id _pdbx_struct_conn_angle.ptnr2_auth_atom_id _pdbx_struct_conn_angle.ptnr2_auth_asym_id _pdbx_struct_conn_angle.ptnr2_auth_comp_id _pdbx_struct_conn_angle.ptnr2_auth_seq_id _pdbx_struct_conn_angle.ptnr2_PDB_ins_code _pdbx_struct_conn_angle.ptnr2_symmetry _pdbx_struct_conn_angle.ptnr3_label_atom_id _pdbx_struct_conn_angle.ptnr3_label_alt_id _pdbx_struct_conn_angle.ptnr3_label_asym_id _pdbx_struct_conn_angle.ptnr3_label_comp_id _pdbx_struct_conn_angle.ptnr3_label_seq_id _pdbx_struct_conn_angle.ptnr3_auth_atom_id _pdbx_struct_conn_angle.ptnr3_auth_asym_id _pdbx_struct_conn_angle.ptnr3_auth_comp_id _pdbx_struct_conn_angle.ptnr3_auth_seq_id _pdbx_struct_conn_angle.ptnr3_PDB_ins_code _pdbx_struct_conn_angle.ptnr3_symmetry _pdbx_struct_conn_angle.value _pdbx_struct_conn_angle.value_esd 1 O ? E HOH . ? A HOH 24 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? E HOH . ? A HOH 26 ? 1_555 88.0 ? 2 O ? E HOH . ? A HOH 24 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? E HOH . ? A HOH 27 ? 1_555 94.4 ? 3 O ? E HOH . ? A HOH 26 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? E HOH . ? A HOH 27 ? 1_555 83.8 ? 4 O ? E HOH . ? A HOH 24 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 27 ? 1_555 172.2 ? 5 O ? E HOH . ? A HOH 26 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 27 ? 1_555 84.4 ? 6 O ? E HOH . ? A HOH 27 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 27 ? 1_555 83.3 ? 7 O ? E HOH . ? A HOH 24 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 38 ? 1_555 103.6 ? 8 O ? E HOH . ? A HOH 26 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 38 ? 1_555 164.4 ? 9 O ? E HOH . ? A HOH 27 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 38 ? 1_555 105.3 ? 10 O ? F HOH . ? B HOH 27 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 38 ? 1_555 84.2 ? 11 O ? E HOH . ? A HOH 24 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 39 ? 1_555 107.6 ? 12 O ? E HOH . ? A HOH 26 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 39 ? 1_555 89.9 ? 13 O ? E HOH . ? A HOH 27 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 39 ? 1_555 156.8 ? 14 O ? F HOH . ? B HOH 27 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 39 ? 1_555 73.9 ? 15 O ? F HOH . ? B HOH 38 ? 1_555 MG ? C MG . ? A MG 13 ? 1_555 O ? F HOH . ? B HOH 39 ? 1_555 76.8 ? # loop_ _struct_site.id _struct_site.pdbx_evidence_code _struct_site.pdbx_auth_asym_id _struct_site.pdbx_auth_comp_id _struct_site.pdbx_auth_seq_id _struct_site.pdbx_auth_ins_code _struct_site.pdbx_num_residues _struct_site.details AC1 Software A MG 13 ? 6 'BINDING SITE FOR RESIDUE MG A 13' AC2 Software B 881 1 ? 20 'BINDING SITE FOR RESIDUE 881 B 1' 1 ? ? ? ? ? ? ? # loop_ _struct_site_gen.id _struct_site_gen.site_id _struct_site_gen.pdbx_num_res _struct_site_gen.label_comp_id _struct_site_gen.label_asym_id _struct_site_gen.label_seq_id _struct_site_gen.pdbx_auth_ins_code _struct_site_gen.auth_comp_id _struct_site_gen.auth_asym_id _struct_site_gen.auth_seq_id _struct_site_gen.label_atom_id _struct_site_gen.label_alt_id _struct_site_gen.symmetry _struct_site_gen.details 1 AC1 6 HOH E . ? HOH A 24 . ? 1_555 ? 2 AC1 6 HOH E . ? HOH A 26 . ? 1_555 ? 3 AC1 6 HOH E . ? HOH A 27 . ? 1_555 ? 4 AC1 6 HOH F . ? HOH B 27 . ? 1_555 ? 5 AC1 6 HOH F . ? HOH B 38 . ? 1_555 ? 6 AC1 6 HOH F . ? HOH B 39 . ? 1_555 ? 7 AC2 20 DA A 6 ? DA A 6 . ? 1_555 ? 8 AC2 20 DT A 7 ? DT A 7 . ? 1_555 ? 9 AC2 20 DT A 8 ? DT A 8 . ? 1_555 ? 10 AC2 20 DC A 9 ? DC A 9 . ? 1_555 ? 11 AC2 20 DG A 10 ? DG A 10 . ? 1_555 ? 12 AC2 20 DC A 11 ? DC A 11 . ? 1_555 ? 13 AC2 20 DC A 11 ? DC A 11 . ? 4_465 ? 14 AC2 20 DG A 12 ? DG A 12 . ? 4_465 ? 15 AC2 20 HOH E . ? HOH A 114 . ? 1_555 ? 16 AC2 20 HOH F . ? HOH B 5 . ? 1_555 ? 17 AC2 20 DG B 4 ? DG B 16 . ? 1_555 ? 18 AC2 20 DA B 5 ? DA B 17 . ? 1_555 ? 19 AC2 20 DA B 6 ? DA B 18 . ? 1_555 ? 20 AC2 20 DT B 7 ? DT B 19 . ? 1_555 ? 21 AC2 20 DT B 8 ? DT B 20 . ? 1_555 ? 22 AC2 20 DC B 9 ? DC B 21 . ? 1_555 ? 23 AC2 20 DC B 11 ? DC B 23 . ? 3_655 ? 24 AC2 20 DG B 12 ? DG B 24 . ? 3_655 ? 25 AC2 20 DG B 12 ? DG B 24 . ? 2_664 ? 26 AC2 20 HOH F . ? HOH B 40 . ? 1_555 ? # _pdbx_validate_symm_contact.id 1 _pdbx_validate_symm_contact.PDB_model_num 1 _pdbx_validate_symm_contact.auth_atom_id_1 O _pdbx_validate_symm_contact.auth_asym_id_1 A _pdbx_validate_symm_contact.auth_comp_id_1 HOH _pdbx_validate_symm_contact.auth_seq_id_1 16 _pdbx_validate_symm_contact.PDB_ins_code_1 ? _pdbx_validate_symm_contact.label_alt_id_1 ? _pdbx_validate_symm_contact.site_symmetry_1 1_555 _pdbx_validate_symm_contact.auth_atom_id_2 O _pdbx_validate_symm_contact.auth_asym_id_2 B _pdbx_validate_symm_contact.auth_comp_id_2 HOH _pdbx_validate_symm_contact.auth_seq_id_2 7 _pdbx_validate_symm_contact.PDB_ins_code_2 ? _pdbx_validate_symm_contact.label_alt_id_2 ? _pdbx_validate_symm_contact.site_symmetry_2 4_565 _pdbx_validate_symm_contact.dist 2.16 # loop_ _pdbx_validate_rmsd_bond.id _pdbx_validate_rmsd_bond.PDB_model_num _pdbx_validate_rmsd_bond.auth_atom_id_1 _pdbx_validate_rmsd_bond.auth_asym_id_1 _pdbx_validate_rmsd_bond.auth_comp_id_1 _pdbx_validate_rmsd_bond.auth_seq_id_1 _pdbx_validate_rmsd_bond.PDB_ins_code_1 _pdbx_validate_rmsd_bond.label_alt_id_1 _pdbx_validate_rmsd_bond.auth_atom_id_2 _pdbx_validate_rmsd_bond.auth_asym_id_2 _pdbx_validate_rmsd_bond.auth_comp_id_2 _pdbx_validate_rmsd_bond.auth_seq_id_2 _pdbx_validate_rmsd_bond.PDB_ins_code_2 _pdbx_validate_rmsd_bond.label_alt_id_2 _pdbx_validate_rmsd_bond.bond_value _pdbx_validate_rmsd_bond.bond_target_value _pdbx_validate_rmsd_bond.bond_deviation _pdbx_validate_rmsd_bond.bond_standard_deviation _pdbx_validate_rmsd_bond.linker_flag 1 1 "O3'" A DG 2 ? ? "C3'" A DG 2 ? ? 1.374 1.419 -0.045 0.006 N 2 1 "O3'" A DC 3 ? ? "C3'" A DC 3 ? ? 1.359 1.419 -0.060 0.006 N 3 1 C5 A DT 8 ? ? C7 A DT 8 ? ? 1.550 1.496 0.054 0.006 N 4 1 "O3'" B DC 13 ? ? "C3'" B DC 13 ? ? 1.367 1.419 -0.052 0.006 N 5 1 "O3'" B DC 15 ? ? "C3'" B DC 15 ? ? 1.366 1.419 -0.053 0.006 N # loop_ _pdbx_validate_rmsd_angle.id _pdbx_validate_rmsd_angle.PDB_model_num _pdbx_validate_rmsd_angle.auth_atom_id_1 _pdbx_validate_rmsd_angle.auth_asym_id_1 _pdbx_validate_rmsd_angle.auth_comp_id_1 _pdbx_validate_rmsd_angle.auth_seq_id_1 _pdbx_validate_rmsd_angle.PDB_ins_code_1 _pdbx_validate_rmsd_angle.label_alt_id_1 _pdbx_validate_rmsd_angle.auth_atom_id_2 _pdbx_validate_rmsd_angle.auth_asym_id_2 _pdbx_validate_rmsd_angle.auth_comp_id_2 _pdbx_validate_rmsd_angle.auth_seq_id_2 _pdbx_validate_rmsd_angle.PDB_ins_code_2 _pdbx_validate_rmsd_angle.label_alt_id_2 _pdbx_validate_rmsd_angle.auth_atom_id_3 _pdbx_validate_rmsd_angle.auth_asym_id_3 _pdbx_validate_rmsd_angle.auth_comp_id_3 _pdbx_validate_rmsd_angle.auth_seq_id_3 _pdbx_validate_rmsd_angle.PDB_ins_code_3 _pdbx_validate_rmsd_angle.label_alt_id_3 _pdbx_validate_rmsd_angle.angle_value _pdbx_validate_rmsd_angle.angle_target_value _pdbx_validate_rmsd_angle.angle_deviation _pdbx_validate_rmsd_angle.angle_standard_deviation _pdbx_validate_rmsd_angle.linker_flag 1 1 "O4'" A DC 1 ? ? "C1'" A DC 1 ? ? N1 A DC 1 ? ? 113.31 108.30 5.01 0.30 N 2 1 "O4'" A DG 2 ? ? "C1'" A DG 2 ? ? "C2'" A DG 2 ? ? 110.90 106.80 4.10 0.50 N 3 1 "O4'" A DA 5 ? ? "C1'" A DA 5 ? ? N9 A DA 5 ? ? 114.67 108.30 6.37 0.30 N 4 1 N1 A DA 5 ? ? C6 A DA 5 ? ? N6 A DA 5 ? ? 122.96 118.60 4.36 0.60 N 5 1 N1 A DA 6 ? ? C6 A DA 6 ? ? N6 A DA 6 ? ? 122.74 118.60 4.14 0.60 N 6 1 OP1 A DT 8 ? ? P A DT 8 ? ? OP2 A DT 8 ? ? 132.67 119.60 13.07 1.50 N 7 1 C5 A DT 8 ? ? C4 A DT 8 ? ? O4 A DT 8 ? ? 120.46 124.90 -4.44 0.70 N 8 1 "O4'" A DC 9 ? ? "C1'" A DC 9 ? ? N1 A DC 9 ? ? 111.20 108.30 2.90 0.30 N 9 1 "C3'" A DG 10 ? ? "C2'" A DG 10 ? ? "C1'" A DG 10 ? ? 96.33 102.40 -6.07 0.80 N 10 1 "O4'" A DG 10 ? ? "C1'" A DG 10 ? ? N9 A DG 10 ? ? 103.19 108.00 -4.81 0.70 N 11 1 "O4'" A DC 11 ? ? "C1'" A DC 11 ? ? N1 A DC 11 ? ? 102.14 108.00 -5.86 0.70 N 12 1 C5 A DG 12 ? ? C6 A DG 12 ? ? N1 A DG 12 ? ? 114.85 111.50 3.35 0.50 N 13 1 "O4'" B DC 13 ? ? "C1'" B DC 13 ? ? N1 B DC 13 ? ? 103.69 108.00 -4.31 0.70 N 14 1 OP1 B DG 14 ? ? P B DG 14 ? ? OP2 B DG 14 ? ? 128.69 119.60 9.09 1.50 N 15 1 "O5'" B DG 14 ? ? P B DG 14 ? ? OP2 B DG 14 ? ? 98.24 105.70 -7.46 0.90 N 16 1 "O4'" B DG 14 ? ? "C1'" B DG 14 ? ? N9 B DG 14 ? ? 101.13 108.00 -6.87 0.70 N 17 1 "C3'" B DG 14 ? ? "O3'" B DG 14 ? ? P B DC 15 ? ? 128.11 119.70 8.41 1.20 Y 18 1 "O4'" B DC 15 ? ? "C1'" B DC 15 ? ? N1 B DC 15 ? ? 103.08 108.00 -4.92 0.70 N 19 1 "O4'" B DG 16 ? ? "C1'" B DG 16 ? ? N9 B DG 16 ? ? 112.48 108.30 4.18 0.30 N 20 1 OP1 B DA 17 ? ? P B DA 17 ? ? OP2 B DA 17 ? ? 129.77 119.60 10.17 1.50 N 21 1 "O5'" B DT 19 ? ? P B DT 19 ? ? OP2 B DT 19 ? ? 99.51 105.70 -6.19 0.90 N 22 1 "C3'" B DT 20 ? ? "C2'" B DT 20 ? ? "C1'" B DT 20 ? ? 95.34 102.40 -7.06 0.80 N 23 1 "O4'" B DT 20 ? ? "C1'" B DT 20 ? ? N1 B DT 20 ? ? 110.99 108.30 2.69 0.30 N 24 1 C4 B DT 20 ? ? C5 B DT 20 ? ? C7 B DT 20 ? ? 123.54 119.00 4.54 0.60 N 25 1 C6 B DT 20 ? ? C5 B DT 20 ? ? C7 B DT 20 ? ? 116.76 122.90 -6.14 0.60 N 26 1 "O3'" B DC 21 ? ? P B DG 22 ? ? OP2 B DG 22 ? ? 118.66 110.50 8.16 1.10 Y 27 1 "O5'" B DG 22 ? ? P B DG 22 ? ? OP2 B DG 22 ? ? 100.08 105.70 -5.62 0.90 N 28 1 "C3'" B DG 22 ? ? "C2'" B DG 22 ? ? "C1'" B DG 22 ? ? 97.25 102.40 -5.15 0.80 N 29 1 C5 B DG 22 ? ? C6 B DG 22 ? ? O6 B DG 22 ? ? 124.68 128.60 -3.92 0.60 N 30 1 "C3'" B DG 22 ? ? "O3'" B DG 22 ? ? P B DC 23 ? ? 128.22 119.70 8.52 1.20 Y 31 1 "O3'" B DG 22 ? ? P B DC 23 ? ? OP2 B DC 23 ? ? 117.15 110.50 6.65 1.10 Y 32 1 "O4'" B DC 23 ? ? "C1'" B DC 23 ? ? N1 B DC 23 ? ? 114.85 108.30 6.55 0.30 N 33 1 "O4'" B DG 24 ? ? "C4'" B DG 24 ? ? "C3'" B DG 24 ? ? 100.46 104.50 -4.04 0.40 N # _struct_site_keywords.site_id 1 _struct_site_keywords.text 'MINOR GROOVE BINDER' # loop_ _chem_comp_atom.comp_id _chem_comp_atom.atom_id _chem_comp_atom.type_symbol _chem_comp_atom.pdbx_aromatic_flag _chem_comp_atom.pdbx_stereo_config _chem_comp_atom.pdbx_ordinal 881 NAA N N N 1 881 NAB N N N 2 881 CAC C Y N 3 881 CAD C Y N 4 881 CAE C Y N 5 881 CAF C Y N 6 881 CAG C Y N 7 881 CAH C Y N 8 881 CAI C Y N 9 881 CAJ C Y N 10 881 CAK C Y N 11 881 CAL C Y N 12 881 CAM C Y N 13 881 CAN C Y N 14 881 CAO C Y N 15 881 CAP C Y N 16 881 CAQ C Y N 17 881 CAR C Y N 18 881 CAS C N N 19 881 CAT C N N 20 881 CAU C N N 21 881 CAV C N N 22 881 CAW C N N 23 881 CAX C N N 24 881 CAY C N N 25 881 CAZ C N N 26 881 NBA N Y N 27 881 NBB N Y N 28 881 NBC N N N 29 881 NBD N N N 30 881 NBE N N N 31 881 NBF N N N 32 881 OBG O N N 33 881 OBH O N N 34 881 OBI O Y N 35 881 CBJ C N N 36 881 CBK C N N 37 881 CBL C Y N 38 881 CBM C Y N 39 881 CBN C Y N 40 881 CBO C Y N 41 881 CBP C Y N 42 881 CBQ C Y N 43 881 CBR C Y N 44 881 CBS C Y N 45 881 CBT C Y N 46 881 CBU C Y N 47 881 CBV C N N 48 881 CBW C N N 49 881 HNAA H N N 50 881 HNAB H N N 51 881 HNAC H N N 52 881 HNAD H N N 53 881 HAC H N N 54 881 HAD H N N 55 881 HAE H N N 56 881 HAF H N N 57 881 HAG H N N 58 881 HAH H N N 59 881 HAI H N N 60 881 HAJ H N N 61 881 HAK H N N 62 881 HAL H N N 63 881 HAM H N N 64 881 HAN H N N 65 881 HAO H N N 66 881 HAP H N N 67 881 HAQ H N N 68 881 HAR H N N 69 881 HAS H N N 70 881 HASA H N N 71 881 HAT H N N 72 881 HATA H N N 73 881 HAU H N N 74 881 HAUA H N N 75 881 HAV H N N 76 881 HAVA H N N 77 881 HAW H N N 78 881 HAWA H N N 79 881 HAX H N N 80 881 HAXA H N N 81 881 HAY H N N 82 881 HAYA H N N 83 881 HAZ H N N 84 881 HAZA H N N 85 881 HNBC H N N 86 881 HNBD H N N 87 881 HBV H N N 88 881 HBW H N N 89 DA OP3 O N N 90 DA P P N N 91 DA OP1 O N N 92 DA OP2 O N N 93 DA "O5'" O N N 94 DA "C5'" C N N 95 DA "C4'" C N R 96 DA "O4'" O N N 97 DA "C3'" C N S 98 DA "O3'" O N N 99 DA "C2'" C N N 100 DA "C1'" C N R 101 DA N9 N Y N 102 DA C8 C Y N 103 DA N7 N Y N 104 DA C5 C Y N 105 DA C6 C Y N 106 DA N6 N N N 107 DA N1 N Y N 108 DA C2 C Y N 109 DA N3 N Y N 110 DA C4 C Y N 111 DA HOP3 H N N 112 DA HOP2 H N N 113 DA "H5'" H N N 114 DA "H5''" H N N 115 DA "H4'" H N N 116 DA "H3'" H N N 117 DA "HO3'" H N N 118 DA "H2'" H N N 119 DA "H2''" H N N 120 DA "H1'" H N N 121 DA H8 H N N 122 DA H61 H N N 123 DA H62 H N N 124 DA H2 H N N 125 DC OP3 O N N 126 DC P P N N 127 DC OP1 O N N 128 DC OP2 O N N 129 DC "O5'" O N N 130 DC "C5'" C N N 131 DC "C4'" C N R 132 DC "O4'" O N N 133 DC "C3'" C N S 134 DC "O3'" O N N 135 DC "C2'" C N N 136 DC "C1'" C N R 137 DC N1 N N N 138 DC C2 C N N 139 DC O2 O N N 140 DC N3 N N N 141 DC C4 C N N 142 DC N4 N N N 143 DC C5 C N N 144 DC C6 C N N 145 DC HOP3 H N N 146 DC HOP2 H N N 147 DC "H5'" H N N 148 DC "H5''" H N N 149 DC "H4'" H N N 150 DC "H3'" H N N 151 DC "HO3'" H N N 152 DC "H2'" H N N 153 DC "H2''" H N N 154 DC "H1'" H N N 155 DC H41 H N N 156 DC H42 H N N 157 DC H5 H N N 158 DC H6 H N N 159 DG OP3 O N N 160 DG P P N N 161 DG OP1 O N N 162 DG OP2 O N N 163 DG "O5'" O N N 164 DG "C5'" C N N 165 DG "C4'" C N R 166 DG "O4'" O N N 167 DG "C3'" C N S 168 DG "O3'" O N N 169 DG "C2'" C N N 170 DG "C1'" C N R 171 DG N9 N Y N 172 DG C8 C Y N 173 DG N7 N Y N 174 DG C5 C Y N 175 DG C6 C N N 176 DG O6 O N N 177 DG N1 N N N 178 DG C2 C N N 179 DG N2 N N N 180 DG N3 N N N 181 DG C4 C Y N 182 DG HOP3 H N N 183 DG HOP2 H N N 184 DG "H5'" H N N 185 DG "H5''" H N N 186 DG "H4'" H N N 187 DG "H3'" H N N 188 DG "HO3'" H N N 189 DG "H2'" H N N 190 DG "H2''" H N N 191 DG "H1'" H N N 192 DG H8 H N N 193 DG H1 H N N 194 DG H21 H N N 195 DG H22 H N N 196 DT OP3 O N N 197 DT P P N N 198 DT OP1 O N N 199 DT OP2 O N N 200 DT "O5'" O N N 201 DT "C5'" C N N 202 DT "C4'" C N R 203 DT "O4'" O N N 204 DT "C3'" C N S 205 DT "O3'" O N N 206 DT "C2'" C N N 207 DT "C1'" C N R 208 DT N1 N N N 209 DT C2 C N N 210 DT O2 O N N 211 DT N3 N N N 212 DT C4 C N N 213 DT O4 O N N 214 DT C5 C N N 215 DT C7 C N N 216 DT C6 C N N 217 DT HOP3 H N N 218 DT HOP2 H N N 219 DT "H5'" H N N 220 DT "H5''" H N N 221 DT "H4'" H N N 222 DT "H3'" H N N 223 DT "HO3'" H N N 224 DT "H2'" H N N 225 DT "H2''" H N N 226 DT "H1'" H N N 227 DT H3 H N N 228 DT H71 H N N 229 DT H72 H N N 230 DT H73 H N N 231 DT H6 H N N 232 HOH O O N N 233 HOH H1 H N N 234 HOH H2 H N N 235 MG MG MG N N 236 # loop_ _chem_comp_bond.comp_id _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.value_order _chem_comp_bond.pdbx_aromatic_flag _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_ordinal 881 NAA CBJ sing N N 1 881 NAB CBK sing N N 2 881 CAC CAE doub Y N 3 881 CAC CAG sing Y N 4 881 CAD CAF doub Y N 5 881 CAD CAH sing Y N 6 881 CAE CAI sing Y N 7 881 CAF CAJ sing Y N 8 881 CAG NBA doub Y N 9 881 CAH NBB doub Y N 10 881 CAI CBN doub Y N 11 881 CAJ CBO doub Y N 12 881 CAK CAO doub Y N 13 881 CAK CBL sing Y N 14 881 CAL CAP doub Y N 15 881 CAL CBM sing Y N 16 881 CAM CAN sing Y N 17 881 CAM CBR doub Y N 18 881 CAN CBS doub Y N 19 881 CAO CBT sing Y N 20 881 CAP CBU sing Y N 21 881 CAQ CBL doub Y N 22 881 CAQ CBP sing Y N 23 881 CAR CBM doub Y N 24 881 CAR CBQ sing Y N 25 881 CAS CAW sing N N 26 881 CAS NBC sing N N 27 881 CAT CAX sing N N 28 881 CAT NBC sing N N 29 881 CAU CAY sing N N 30 881 CAU NBD sing N N 31 881 CAV CAZ sing N N 32 881 CAV NBD sing N N 33 881 CAW CBV sing N N 34 881 CAX CBV sing N N 35 881 CAY CBW sing N N 36 881 CAZ CBW sing N N 37 881 NBA CBN sing Y N 38 881 NBB CBO sing Y N 39 881 NBE CBJ doub N N 40 881 NBE CBL sing N N 41 881 NBF CBK doub N N 42 881 NBF CBM sing N N 43 881 OBG CBP sing N N 44 881 OBG CBV sing N N 45 881 OBH CBQ sing N N 46 881 OBH CBW sing N N 47 881 OBI CBR sing Y N 48 881 OBI CBS sing Y N 49 881 CBJ CBN sing N N 50 881 CBK CBO sing N N 51 881 CBP CBT doub Y N 52 881 CBQ CBU doub Y N 53 881 CBR CBT sing Y N 54 881 CBS CBU sing Y N 55 881 NAA HNAA sing N N 56 881 NAA HNAB sing N N 57 881 NAB HNAC sing N N 58 881 NAB HNAD sing N N 59 881 CAC HAC sing N N 60 881 CAD HAD sing N N 61 881 CAE HAE sing N N 62 881 CAF HAF sing N N 63 881 CAG HAG sing N N 64 881 CAH HAH sing N N 65 881 CAI HAI sing N N 66 881 CAJ HAJ sing N N 67 881 CAK HAK sing N N 68 881 CAL HAL sing N N 69 881 CAM HAM sing N N 70 881 CAN HAN sing N N 71 881 CAO HAO sing N N 72 881 CAP HAP sing N N 73 881 CAQ HAQ sing N N 74 881 CAR HAR sing N N 75 881 CAS HAS sing N N 76 881 CAS HASA sing N N 77 881 CAT HAT sing N N 78 881 CAT HATA sing N N 79 881 CAU HAU sing N N 80 881 CAU HAUA sing N N 81 881 CAV HAV sing N N 82 881 CAV HAVA sing N N 83 881 CAW HAW sing N N 84 881 CAW HAWA sing N N 85 881 CAX HAX sing N N 86 881 CAX HAXA sing N N 87 881 CAY HAY sing N N 88 881 CAY HAYA sing N N 89 881 CAZ HAZ sing N N 90 881 CAZ HAZA sing N N 91 881 NBC HNBC sing N N 92 881 NBD HNBD sing N N 93 881 CBV HBV sing N N 94 881 CBW HBW sing N N 95 DA OP3 P sing N N 96 DA OP3 HOP3 sing N N 97 DA P OP1 doub N N 98 DA P OP2 sing N N 99 DA P "O5'" sing N N 100 DA OP2 HOP2 sing N N 101 DA "O5'" "C5'" sing N N 102 DA "C5'" "C4'" sing N N 103 DA "C5'" "H5'" sing N N 104 DA "C5'" "H5''" sing N N 105 DA "C4'" "O4'" sing N N 106 DA "C4'" "C3'" sing N N 107 DA "C4'" "H4'" sing N N 108 DA "O4'" "C1'" sing N N 109 DA "C3'" "O3'" sing N N 110 DA "C3'" "C2'" sing N N 111 DA "C3'" "H3'" sing N N 112 DA "O3'" "HO3'" sing N N 113 DA "C2'" "C1'" sing N N 114 DA "C2'" "H2'" sing N N 115 DA "C2'" "H2''" sing N N 116 DA "C1'" N9 sing N N 117 DA "C1'" "H1'" sing N N 118 DA N9 C8 sing Y N 119 DA N9 C4 sing Y N 120 DA C8 N7 doub Y N 121 DA C8 H8 sing N N 122 DA N7 C5 sing Y N 123 DA C5 C6 sing Y N 124 DA C5 C4 doub Y N 125 DA C6 N6 sing N N 126 DA C6 N1 doub Y N 127 DA N6 H61 sing N N 128 DA N6 H62 sing N N 129 DA N1 C2 sing Y N 130 DA C2 N3 doub Y N 131 DA C2 H2 sing N N 132 DA N3 C4 sing Y N 133 DC OP3 P sing N N 134 DC OP3 HOP3 sing N N 135 DC P OP1 doub N N 136 DC P OP2 sing N N 137 DC P "O5'" sing N N 138 DC OP2 HOP2 sing N N 139 DC "O5'" "C5'" sing N N 140 DC "C5'" "C4'" sing N N 141 DC "C5'" "H5'" sing N N 142 DC "C5'" "H5''" sing N N 143 DC "C4'" "O4'" sing N N 144 DC "C4'" "C3'" sing N N 145 DC "C4'" "H4'" sing N N 146 DC "O4'" "C1'" sing N N 147 DC "C3'" "O3'" sing N N 148 DC "C3'" "C2'" sing N N 149 DC "C3'" "H3'" sing N N 150 DC "O3'" "HO3'" sing N N 151 DC "C2'" "C1'" sing N N 152 DC "C2'" "H2'" sing N N 153 DC "C2'" "H2''" sing N N 154 DC "C1'" N1 sing N N 155 DC "C1'" "H1'" sing N N 156 DC N1 C2 sing N N 157 DC N1 C6 sing N N 158 DC C2 O2 doub N N 159 DC C2 N3 sing N N 160 DC N3 C4 doub N N 161 DC C4 N4 sing N N 162 DC C4 C5 sing N N 163 DC N4 H41 sing N N 164 DC N4 H42 sing N N 165 DC C5 C6 doub N N 166 DC C5 H5 sing N N 167 DC C6 H6 sing N N 168 DG OP3 P sing N N 169 DG OP3 HOP3 sing N N 170 DG P OP1 doub N N 171 DG P OP2 sing N N 172 DG P "O5'" sing N N 173 DG OP2 HOP2 sing N N 174 DG "O5'" "C5'" sing N N 175 DG "C5'" "C4'" sing N N 176 DG "C5'" "H5'" sing N N 177 DG "C5'" "H5''" sing N N 178 DG "C4'" "O4'" sing N N 179 DG "C4'" "C3'" sing N N 180 DG "C4'" "H4'" sing N N 181 DG "O4'" "C1'" sing N N 182 DG "C3'" "O3'" sing N N 183 DG "C3'" "C2'" sing N N 184 DG "C3'" "H3'" sing N N 185 DG "O3'" "HO3'" sing N N 186 DG "C2'" "C1'" sing N N 187 DG "C2'" "H2'" sing N N 188 DG "C2'" "H2''" sing N N 189 DG "C1'" N9 sing N N 190 DG "C1'" "H1'" sing N N 191 DG N9 C8 sing Y N 192 DG N9 C4 sing Y N 193 DG C8 N7 doub Y N 194 DG C8 H8 sing N N 195 DG N7 C5 sing Y N 196 DG C5 C6 sing N N 197 DG C5 C4 doub Y N 198 DG C6 O6 doub N N 199 DG C6 N1 sing N N 200 DG N1 C2 sing N N 201 DG N1 H1 sing N N 202 DG C2 N2 sing N N 203 DG C2 N3 doub N N 204 DG N2 H21 sing N N 205 DG N2 H22 sing N N 206 DG N3 C4 sing N N 207 DT OP3 P sing N N 208 DT OP3 HOP3 sing N N 209 DT P OP1 doub N N 210 DT P OP2 sing N N 211 DT P "O5'" sing N N 212 DT OP2 HOP2 sing N N 213 DT "O5'" "C5'" sing N N 214 DT "C5'" "C4'" sing N N 215 DT "C5'" "H5'" sing N N 216 DT "C5'" "H5''" sing N N 217 DT "C4'" "O4'" sing N N 218 DT "C4'" "C3'" sing N N 219 DT "C4'" "H4'" sing N N 220 DT "O4'" "C1'" sing N N 221 DT "C3'" "O3'" sing N N 222 DT "C3'" "C2'" sing N N 223 DT "C3'" "H3'" sing N N 224 DT "O3'" "HO3'" sing N N 225 DT "C2'" "C1'" sing N N 226 DT "C2'" "H2'" sing N N 227 DT "C2'" "H2''" sing N N 228 DT "C1'" N1 sing N N 229 DT "C1'" "H1'" sing N N 230 DT N1 C2 sing N N 231 DT N1 C6 sing N N 232 DT C2 O2 doub N N 233 DT C2 N3 sing N N 234 DT N3 C4 sing N N 235 DT N3 H3 sing N N 236 DT C4 O4 doub N N 237 DT C4 C5 sing N N 238 DT C5 C7 sing N N 239 DT C5 C6 doub N N 240 DT C7 H71 sing N N 241 DT C7 H72 sing N N 242 DT C7 H73 sing N N 243 DT C6 H6 sing N N 244 HOH O H1 sing N N 245 HOH O H2 sing N N 246 # loop_ _ndb_struct_conf_na.entry_id _ndb_struct_conf_na.feature 3OIE 'double helix' 3OIE 'b-form double helix' # loop_ _ndb_struct_na_base_pair.model_number _ndb_struct_na_base_pair.i_label_asym_id _ndb_struct_na_base_pair.i_label_comp_id _ndb_struct_na_base_pair.i_label_seq_id _ndb_struct_na_base_pair.i_symmetry _ndb_struct_na_base_pair.j_label_asym_id _ndb_struct_na_base_pair.j_label_comp_id _ndb_struct_na_base_pair.j_label_seq_id _ndb_struct_na_base_pair.j_symmetry _ndb_struct_na_base_pair.shear _ndb_struct_na_base_pair.stretch _ndb_struct_na_base_pair.stagger _ndb_struct_na_base_pair.buckle _ndb_struct_na_base_pair.propeller _ndb_struct_na_base_pair.opening _ndb_struct_na_base_pair.pair_number _ndb_struct_na_base_pair.pair_name _ndb_struct_na_base_pair.i_auth_asym_id _ndb_struct_na_base_pair.i_auth_seq_id _ndb_struct_na_base_pair.i_PDB_ins_code _ndb_struct_na_base_pair.j_auth_asym_id _ndb_struct_na_base_pair.j_auth_seq_id _ndb_struct_na_base_pair.j_PDB_ins_code _ndb_struct_na_base_pair.hbond_type_28 _ndb_struct_na_base_pair.hbond_type_12 1 A DC 1 1_555 B DG 12 1_555 0.104 -0.300 -0.727 6.573 13.946 -1.644 1 A_DC1:DG24_B A 1 ? B 24 ? 19 1 1 A DG 2 1_555 B DC 11 1_555 -0.173 -0.167 0.327 -6.550 -10.220 -3.517 2 A_DG2:DC23_B A 2 ? B 23 ? 19 1 1 A DC 3 1_555 B DG 10 1_555 0.212 -0.149 0.183 -5.629 -4.679 -0.569 3 A_DC3:DG22_B A 3 ? B 22 ? 19 1 1 A DG 4 1_555 B DC 9 1_555 -0.170 -0.212 -0.051 7.884 -11.704 -0.617 4 A_DG4:DC21_B A 4 ? B 21 ? 19 1 1 A DA 5 1_555 B DT 8 1_555 0.152 -0.299 -0.057 3.906 -8.041 -1.206 5 A_DA5:DT20_B A 5 ? B 20 ? 20 1 1 A DA 6 1_555 B DT 7 1_555 0.048 -0.020 0.231 6.421 -14.092 5.860 6 A_DA6:DT19_B A 6 ? B 19 ? 20 1 1 A DT 7 1_555 B DA 6 1_555 0.046 -0.184 0.088 0.668 -15.907 6.081 7 A_DT7:DA18_B A 7 ? B 18 ? 20 1 1 A DT 8 1_555 B DA 5 1_555 0.124 -0.261 -0.032 -7.853 -20.081 7.022 8 A_DT8:DA17_B A 8 ? B 17 ? 20 1 1 A DC 9 1_555 B DG 4 1_555 0.238 -0.214 -0.242 -7.214 -1.853 -1.198 9 A_DC9:DG16_B A 9 ? B 16 ? 19 1 1 A DG 10 1_555 B DC 3 1_555 -0.038 0.132 0.307 4.785 -6.593 3.060 10 A_DG10:DC15_B A 10 ? B 15 ? 19 1 1 A DC 11 1_555 B DG 2 1_555 0.159 -0.194 0.303 -0.117 -12.234 -4.067 11 A_DC11:DG14_B A 11 ? B 14 ? 19 1 1 A DG 12 1_555 B DC 1 1_555 0.230 -0.229 0.103 11.283 -0.413 -1.813 12 A_DG12:DC13_B A 12 ? B 13 ? 19 1 # loop_ _ndb_struct_na_base_pair_step.model_number _ndb_struct_na_base_pair_step.i_label_asym_id_1 _ndb_struct_na_base_pair_step.i_label_comp_id_1 _ndb_struct_na_base_pair_step.i_label_seq_id_1 _ndb_struct_na_base_pair_step.i_symmetry_1 _ndb_struct_na_base_pair_step.j_label_asym_id_1 _ndb_struct_na_base_pair_step.j_label_comp_id_1 _ndb_struct_na_base_pair_step.j_label_seq_id_1 _ndb_struct_na_base_pair_step.j_symmetry_1 _ndb_struct_na_base_pair_step.i_label_asym_id_2 _ndb_struct_na_base_pair_step.i_label_comp_id_2 _ndb_struct_na_base_pair_step.i_label_seq_id_2 _ndb_struct_na_base_pair_step.i_symmetry_2 _ndb_struct_na_base_pair_step.j_label_asym_id_2 _ndb_struct_na_base_pair_step.j_label_comp_id_2 _ndb_struct_na_base_pair_step.j_label_seq_id_2 _ndb_struct_na_base_pair_step.j_symmetry_2 _ndb_struct_na_base_pair_step.shift _ndb_struct_na_base_pair_step.slide _ndb_struct_na_base_pair_step.rise _ndb_struct_na_base_pair_step.tilt _ndb_struct_na_base_pair_step.roll _ndb_struct_na_base_pair_step.twist _ndb_struct_na_base_pair_step.x_displacement _ndb_struct_na_base_pair_step.y_displacement _ndb_struct_na_base_pair_step.helical_rise _ndb_struct_na_base_pair_step.inclination _ndb_struct_na_base_pair_step.tip _ndb_struct_na_base_pair_step.helical_twist _ndb_struct_na_base_pair_step.step_number _ndb_struct_na_base_pair_step.step_name _ndb_struct_na_base_pair_step.i_auth_asym_id_1 _ndb_struct_na_base_pair_step.i_auth_seq_id_1 _ndb_struct_na_base_pair_step.i_PDB_ins_code_1 _ndb_struct_na_base_pair_step.j_auth_asym_id_1 _ndb_struct_na_base_pair_step.j_auth_seq_id_1 _ndb_struct_na_base_pair_step.j_PDB_ins_code_1 _ndb_struct_na_base_pair_step.i_auth_asym_id_2 _ndb_struct_na_base_pair_step.i_auth_seq_id_2 _ndb_struct_na_base_pair_step.i_PDB_ins_code_2 _ndb_struct_na_base_pair_step.j_auth_asym_id_2 _ndb_struct_na_base_pair_step.j_auth_seq_id_2 _ndb_struct_na_base_pair_step.j_PDB_ins_code_2 1 A DC 1 1_555 B DG 12 1_555 A DG 2 1_555 B DC 11 1_555 -1.342 -0.897 3.853 -8.754 -10.711 32.554 0.545 0.558 4.151 -18.121 14.811 35.298 1 AA_DC1DG2:DC23DG24_BB A 1 ? B 24 ? A 2 ? B 23 ? 1 A DG 2 1_555 B DC 11 1_555 A DC 3 1_555 B DG 10 1_555 0.599 0.170 3.385 3.453 2.430 39.147 -0.048 -0.462 3.428 3.614 -5.134 39.365 2 AA_DG2DC3:DG22DC23_BB A 2 ? B 23 ? A 3 ? B 22 ? 1 A DC 3 1_555 B DG 10 1_555 A DG 4 1_555 B DC 9 1_555 -0.441 0.870 3.145 3.273 8.904 29.141 -0.102 1.479 3.198 17.133 -6.299 30.614 3 AA_DC3DG4:DC21DG22_BB A 3 ? B 22 ? A 4 ? B 21 ? 1 A DG 4 1_555 B DC 9 1_555 A DA 5 1_555 B DT 8 1_555 0.994 0.104 3.363 3.132 -1.143 36.631 0.326 -1.131 3.429 -1.813 -4.970 36.777 4 AA_DG4DA5:DT20DC21_BB A 4 ? B 21 ? A 5 ? B 20 ? 1 A DA 5 1_555 B DT 8 1_555 A DA 6 1_555 B DT 7 1_555 -0.496 0.106 3.199 -3.378 2.982 34.489 -0.271 0.321 3.229 5.002 5.667 34.773 5 AA_DA5DA6:DT19DT20_BB A 5 ? B 20 ? A 6 ? B 19 ? 1 A DA 6 1_555 B DT 7 1_555 A DT 7 1_555 B DA 6 1_555 -0.036 -0.676 3.376 1.491 0.500 34.474 -1.220 0.299 3.362 0.843 -2.514 34.509 6 AA_DA6DT7:DA18DT19_BB A 6 ? B 19 ? A 7 ? B 18 ? 1 A DT 7 1_555 B DA 6 1_555 A DT 8 1_555 B DA 5 1_555 -0.081 -0.174 3.415 1.759 2.715 36.434 -0.666 0.381 3.386 4.332 -2.806 36.573 7 AA_DT7DT8:DA17DA18_BB A 7 ? B 18 ? A 8 ? B 17 ? 1 A DT 8 1_555 B DA 5 1_555 A DC 9 1_555 B DG 4 1_555 0.489 0.735 3.387 3.345 3.854 39.110 0.611 -0.309 3.470 5.727 -4.971 39.428 8 AA_DT8DC9:DG16DA17_BB A 8 ? B 17 ? A 9 ? B 16 ? 1 A DC 9 1_555 B DG 4 1_555 A DG 10 1_555 B DC 3 1_555 -0.257 1.056 3.157 -6.321 1.688 31.706 1.602 -0.635 3.197 3.049 11.417 32.357 9 AA_DC9DG10:DC15DG16_BB A 9 ? B 16 ? A 10 ? B 15 ? 1 A DG 10 1_555 B DC 3 1_555 A DC 11 1_555 B DG 2 1_555 -1.469 0.862 3.467 -2.474 -7.660 43.411 1.904 1.712 3.351 -10.250 3.310 44.115 10 AA_DG10DC11:DG14DC15_BB A 10 ? B 15 ? A 11 ? B 14 ? 1 A DC 11 1_555 B DG 2 1_555 A DG 12 1_555 B DC 1 1_555 1.287 0.862 3.259 2.225 -3.662 33.973 2.038 -1.838 3.227 -6.236 -3.789 34.234 11 AA_DC11DG12:DC13DG14_BB A 11 ? B 14 ? A 12 ? B 13 ? # _atom_sites.entry_id 3OIE _atom_sites.fract_transf_matrix[1][1] 0.041470 _atom_sites.fract_transf_matrix[1][2] 0.000000 _atom_sites.fract_transf_matrix[1][3] 0.000000 _atom_sites.fract_transf_matrix[2][1] 0.000000 _atom_sites.fract_transf_matrix[2][2] 0.026030 _atom_sites.fract_transf_matrix[2][3] 0.000000 _atom_sites.fract_transf_matrix[3][1] 0.000000 _atom_sites.fract_transf_matrix[3][2] 0.000000 _atom_sites.fract_transf_matrix[3][3] 0.015105 _atom_sites.fract_transf_vector[1] 0.000000 _atom_sites.fract_transf_vector[2] 0.000000 _atom_sites.fract_transf_vector[3] 0.000000 # loop_ _atom_type.symbol C MG N O P # loop_